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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTACCTGGACCCGAATGCACAGGTTCTTCTTTCACAGCTGAATCGGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctactatgaatcatccttcatacaagcgtttaatgttaaaatatttttatcagagctctttagtgatgcatgcacccataattgttggatttgt...

Basic information

species Zea mays
transcript GRMZM2G131324_T01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G131324_T01 (Zea mays), 5'ss of exon 8
lower sequence: LOC_Os03g21914.1 (Oryza sativa), 5'ss of exon 7
GTACCTGGACCCGAATGCACAGGTTCTTCTTTCACAGCTGAATCGGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctactatgaatcatccttcatacaagcgtttaatgttaaaatatttttatcagagc---tctttagtgatgcatgcacccataattgttggatttgt--
||| ||| | ||  | || ||||||||  | ||||||||||| || |||||||||||   |||||||||||| ||||| |  ||||||||||||||| || |   ||||| |    |  || |    || || |||||       ||||| | |||   | |||    |   |||        |   |    |  |   
GTATCTGAATCCAGAGGCGCAGGTTCTCTTGTCACAGCTGAACCGACAGATGGCACCCAAGTTTGGCAAGTTAAACAAATCGTTAGCTGAACTGgtacgcatgacatgaacc--tgtaaattcttctgtatattgtta---ctcctttataaaagcctatatttgtcaaaatatgtggttgccagcctgttgtcagaac
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|22818869|gb|BU498959.1|BU498959
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|76293904|gb|DV033472.1|DV033472
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|76281817|gb|DV021385.1|DV021385
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|67031739|gb|CO460488.1|CO460488
EST:     GGCAGATGCCACCCCGGTTTG-CAAGTTGAACA-GTGTTTANCTGAACTG                         GGTGATGATTACAGCATGGTTAATTTCATTCCACTTTGATT-GAGAAAGGA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTT-GATTTGAGAAAGGA
EST: gi|32807837|gb|CD960071.1|CD960071
EST:     GGCAGATGGCACCCCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTA
EST: gi|71435200|gb|DR816250.1|DR816250
EST:     GTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|32792814|gb|CD945050.1|CD945050
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTCGATGATTACAGCATGGTTA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTA
EST: gi|76016034|gb|DT943204.1|DT943204
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|71758032|gb|DR955969.1|DR955969
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|76010883|gb|DT938053.1|DT938053
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|148995051|gb|EE034364.2|EE034364
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCCCTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|24764738|gb|CA399901.1|CA399901
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|78113480|gb|DV531871.1|DV531871
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|71758174|gb|DR956111.1|DR956111
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|111197436|gb|EE295571.1|EE295571
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|211012560|gb|FL439511.1|FL439511
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|87156287|gb|DY401076.1|DY401076
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
EST: gi|60343210|gb|DN210183.1|DN210183
EST:     GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTG                         GTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA
genomic: GGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctac ... cattgtgtagGTTGATGATTACAGCATGGTTAATTTCATTCCACTTGATTTGAGAAAGGAA

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTACCTGGACCCGAATGCACAGGTTCTTCTTTCACAGCTGAATCGGCAGATGGCACCTCGGTTTGGCAAGTTGAACAAGTGTTTAGCTGAACTGgtaagcctactatgaatcatccttcatacaagcgtttaatgttaaaatatttttatcagagctctttagtgatgcatgcacccataattgttggatttgt

- - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA